SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684013_1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Python version: could not detect Number of cores used for trimming: 2 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 130315). Second best hit was smallRNA (count: 0) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp Output file will be GZIP compressed This is cutadapt 4.2 with Python 3.10.8 Command line parameters: -j 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR10684013_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 2365.730 s (18.587 µs/read; 3.23 M reads/minute). === Summary === Total reads processed: 127,279,130 Reads with adapters: 74,495,863 (58.5%) Reads written (passing filters): 127,279,130 (100.0%) Total basepairs processed: 19,219,148,630 bp Quality-trimmed: 74,803,333 bp (0.4%) Total written (filtered): 18,296,155,820 bp (95.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 74495863 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 50.9% C: 17.2% G: 0.6% T: 31.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 53937257 31819782.5 0 53937257 2 419344 7954945.6 0 419344 3 411072 1988736.4 0 411072 4 336548 497184.1 0 336548 5 351093 124296.0 0 351093 6 311017 31074.0 0 311017 7 304150 7768.5 0 304150 8 386846 1942.1 0 386846 9 228166 485.5 0 227412 754 10 339364 121.4 1 310885 28479 11 285508 30.3 1 256497 29011 12 333618 7.6 1 287428 46190 13 313064 1.9 1 270789 42275 14 366274 1.9 1 316121 50153 15 265531 1.9 1 228508 37023 16 302813 1.9 1 261486 41327 17 411047 1.9 1 358473 52574 18 185305 1.9 1 159536 25769 19 421738 1.9 1 367104 54634 20 295882 1.9 1 258242 37640 21 183241 1.9 1 158258 24983 22 294750 1.9 1 255964 38786 23 296087 1.9 1 258059 38028 24 340495 1.9 1 297558 42937 25 309114 1.9 1 271892 37222 26 271391 1.9 1 236727 34664 27 263219 1.9 1 229140 34079 28 284402 1.9 1 251964 32438 29 268902 1.9 1 235542 33360 30 284908 1.9 1 252629 32279 31 267238 1.9 1 235540 31698 32 281940 1.9 1 250012 31928 33 298968 1.9 1 265093 33875 34 278061 1.9 1 246344 31717 35 225074 1.9 1 196925 28149 36 265295 1.9 1 236428 28867 37 308207 1.9 1 277061 31146 38 233474 1.9 1 206080 27394 39 289307 1.9 1 260088 29219 40 176968 1.9 1 157730 19238 41 255637 1.9 1 228106 27531 42 279154 1.9 1 250183 28971 43 209326 1.9 1 187046 22280 44 236924 1.9 1 213166 23758 45 259151 1.9 1 232194 26957 46 247796 1.9 1 222425 25371 47 229389 1.9 1 207865 21524 48 209366 1.9 1 187676 21690 49 233130 1.9 1 209202 23928 50 213074 1.9 1 193642 19432 51 203367 1.9 1 184313 19054 52 213226 1.9 1 193023 20203 53 210110 1.9 1 190324 19786 54 254158 1.9 1 231915 22243 55 155761 1.9 1 140734 15027 56 208543 1.9 1 188677 19866 57 275693 1.9 1 251128 24565 58 135858 1.9 1 122711 13147 59 167268 1.9 1 152448 14820 60 202097 1.9 1 184472 17625 61 195046 1.9 1 177908 17138 62 155272 1.9 1 141060 14212 63 357338 1.9 1 329396 27942 64 141532 1.9 1 129077 12455 65 116443 1.9 1 106298 10145 66 108326 1.9 1 99298 9028 67 186260 1.9 1 172240 14020 68 163052 1.9 1 149464 13588 69 146428 1.9 1 134781 11647 70 164466 1.9 1 151858 12608 71 158455 1.9 1 146124 12331 72 157193 1.9 1 144740 12453 73 207218 1.9 1 191735 15483 74 129273 1.9 1 119493 9780 75 126714 1.9 1 117806 8908 76 88129 1.9 1 81571 6558 77 86888 1.9 1 80207 6681 78 93695 1.9 1 86734 6961 79 92105 1.9 1 85450 6655 80 91270 1.9 1 84624 6646 81 88787 1.9 1 82298 6489 82 88335 1.9 1 81853 6482 83 89402 1.9 1 82994 6408 84 84489 1.9 1 78605 5884 85 84109 1.9 1 78070 6039 86 77411 1.9 1 72094 5317 87 72401 1.9 1 67521 4880 88 69239 1.9 1 64490 4749 89 66820 1.9 1 62374 4446 90 65386 1.9 1 61108 4278 91 60107 1.9 1 56404 3703 92 58555 1.9 1 54836 3719 93 55176 1.9 1 51709 3467 94 50249 1.9 1 47131 3118 95 48068 1.9 1 45165 2903 96 45258 1.9 1 42474 2784 97 42036 1.9 1 39574 2462 98 40441 1.9 1 38029 2412 99 38700 1.9 1 36424 2276 100 36079 1.9 1 34025 2054 101 30971 1.9 1 29185 1786 102 27291 1.9 1 25759 1532 103 25021 1.9 1 23680 1341 104 21997 1.9 1 20810 1187 105 20141 1.9 1 19094 1047 106 17788 1.9 1 16854 934 107 16046 1.9 1 15244 802 108 14209 1.9 1 13479 730 109 11863 1.9 1 11243 620 110 10136 1.9 1 9659 477 111 8594 1.9 1 8162 432 112 7197 1.9 1 6837 360 113 6161 1.9 1 5817 344 114 4993 1.9 1 4746 247 115 4104 1.9 1 3886 218 116 3345 1.9 1 3165 180 117 2526 1.9 1 2420 106 118 1939 1.9 1 1845 94 119 1609 1.9 1 1520 89 120 3521 1.9 1 3315 206 121 1017 1.9 1 960 57 122 700 1.9 1 656 44 123 498 1.9 1 463 35 124 347 1.9 1 309 38 125 252 1.9 1 233 19 126 196 1.9 1 185 11 127 165 1.9 1 143 22 128 129 1.9 1 117 12 129 117 1.9 1 106 11 130 128 1.9 1 115 13 131 111 1.9 1 104 7 132 69 1.9 1 61 8 133 114 1.9 1 104 10 134 62 1.9 1 50 12 135 66 1.9 1 58 8 136 56 1.9 1 49 7 137 67 1.9 1 61 6 138 55 1.9 1 50 5 139 52 1.9 1 44 8 140 46 1.9 1 38 8 141 54 1.9 1 50 4 142 26 1.9 1 23 3 143 25 1.9 1 18 7 144 20 1.9 1 16 4 145 24 1.9 1 15 9 146 10 1.9 1 8 2 147 27 1.9 1 22 5 148 33 1.9 1 24 9 149 27 1.9 1 24 3 150 20 1.9 1 11 9 151 41 1.9 1 23 18 RUN STATISTICS FOR INPUT FILE: ERR10684013_1.fastq.gz ============================================= 127279130 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 127279130 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 31238 (0.02%)